Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001574.1 Hibiscus syriacus cultivar Beakdansim tig00003126_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1705968
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 7
Found at i:1226 original size:83 final size:83
Alignment explanation
Indices: 1106--2115 Score: 1102
Period size: 83 Copynumber: 12.1 Consensus size: 83
1096 TACCTTGAAC
* * * *
1106 TATGCTGTAAATTTGATTTTCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGA
1 TATGCTGTAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGA
* * *
1171 CAACCCTTCTCGCCTTGAGC
64 TAACCCTTCTTGCCTTGAGT
* * * * * * *
1191 TATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTTGAATGTCTTTTCTTGGCAGAG
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGAT
* *
1256 AGCCCTTCTTGCCTTGAGC
65 AACCCTTCTTGCCTTGAGT
* * * * *
1275 TATGCTGCAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCCAAGGTCTTGGTTGATAGATA
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
* **
1340 ACCCTTCTCGCCTTTTGT
66 ACCCTTCTTGCCTTGAGT
* * * *
1358 TATGTTGTAAATAATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGATCTTTGTT-AGCAGAT
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGA-CAGAT
* *
1422 AGCCCTTCTCGCCTTGAGT
65 AACCCTTCTTGCCTTGAGT
* * * * * * *
1441 TGTGCTGCAAATGATGT-TCTTTAAGGTGAGTGTAATCGAACTCGAAGGTCTTTTTTGATAGATA
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
*
1505 A-CCTTTTTAGCCTTGAGT
66 ACCCTTCTT-GCCTTGAGT
*
1523 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGGA-AGAT
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT-GACAGAT
* *
1587 AGCCCTTCTTGCATTGCA-T
65 AACCCTTCTTGCCTTG-AGT
* * *
1606 TATGCTGCAAAT-ATGTGCCTTTGAGCTGAGTGTAATCTAACTCGAAGGTCTTTGTTGACATATA
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
* * *
1670 ACCCTTCTAGACTTGAAT
66 ACCCTTCTTGCCTTGAGT
* * * * **
1688 TATGTTGTAAATGATGTGTCTTTAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGTTGGTAGATA
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
* *
1753 GCCCTTCTTGCCTTGAGC
66 ACCCTTCTTGCCTTGAGT
** * *
1771 TATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTAACAAATA
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
*
1836 ACCCTTCTAGCCTTGAGT
66 ACCCTTCTTGCCTTGAGT
* * * *
1854 TATGCTGTAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTATTTATTGGCAGATA
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
*
1919 ACCCTTCTTGCC-TGAGC
66 ACCCTTCTTGCCTTGAGT
* * * * * * * *
1936 TATACTGCAAATGATGTGTCTTTCAACTGAATGTAATCAAACTCGAAGGTCTTTTTTGACAGATA
1 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
2001 ACCCTT-TATGCCTTGAGT
66 ACCCTTCT-TGCCTTGAGT
* * * * * * * *
2019 TTTTCTATAAATTTGATGTGGCTCTGAACTGAATGTAATCGAACTCAAAGGTCTTTGTTAGA-AG
1 TATGCTGTAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT-GACAG
* * *
2083 ATAGCCCTTCTTACCTTGAGC
63 ATAACCCTTCTTGCCTTGAGT
2104 TATGCTGTAAAT
1 TATGCTGTAAAT
2116 AATTTCTTTA
Statistics
Matches: 772, Mismatches: 136, Indels: 36
0.82 0.14 0.04
Matches are distributed among these distances:
81 9 0.01
82 200 0.26
83 403 0.52
84 81 0.10
85 76 0.10
86 3 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (83 bp):
TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATA
ACCCTTCTTGCCTTGAGT
Found at i:1534 original size:165 final size:166
Alignment explanation
Indices: 1098--2115 Score: 1229
Period size: 165 Copynumber: 6.1 Consensus size: 166
1088 GCTCTTTTTA
* * * * * * *
1098 CCTTGAACTATGCTGTAAATTTGATTTTCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGG
1 CCTTGAGCTATGCTGCAAA--TGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
* * * *
1163 TTGACAGACAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
64 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAAT
* * * *
1228 CAAACTTGAATGTCTTTTCTTGGCAGAGAGCCCTTCTTG
129 CAAACTCGAAGGTC-TTTGTTGGCAGATAGCCCTTCTTG
* * * *
1267 CCTTGAGCTATGCTGCAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCCAAGGTCTTGGTT
1 CCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT
* * ** * *
1332 GATAGATAACCCTTCTCGCCTTTTGTTATGTTGTAAATAATGTGCCTTTGAGCTGAGTGTAATCA
66 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCA
* * *
1397 AACTCGAAGATCTTTGTTAGCAGATAGCCCTTCTCG
131 AACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTG
* * * * *
1433 CCTTGAGTTGTGCTGCAAATGATGT-TCTTTAAGGTGAGTGTAATCGAACTCGAAGGTCTTTTTT
1 CCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT
* * *
1497 GATAGATAACCTTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCA
66 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCA
*
1562 AACTCGAAGGTCTTTGTTGGAAGATAGCCCTTCTTG
131 AACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTG
* * * *
1598 CATTGCA-TTATGCTGCAAAT-ATGTGCCTTTGAGCTGAGTGTAATCTAACTCGAAGGTCTTTGT
1 CCTTG-AGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGT
* * * * * * *
1661 TGACATATAACCCTTCTAGACTTGAATTATGTTGTAAATGATGTGTCTTTAAGCTAAGTGTAATC
65 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATC
* *
1726 GAACTCGAAGGTCTTTGTTGGTAGATAGCCCTTCTTG
130 AAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTG
* *
1763 CCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT
1 CCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT
* * * *
1828 AACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGATGAGTGTAATCG
66 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCA
* * *
1893 AACTCGAAGGTATTTATTGGCAGATAACCCTTCTTG
131 AACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTG
* * * * *
1929 CC-TGAGCTATACTGCAAATGATGTGTCTTTCAA-CTGAATGTAATCAAACTCGAAGGTCTTTTT
1 CCTTGAGCTATGCTGCAAATGATGTGCCTTT-AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGT
* * * * * * *
1992 TGACAGATAACCCTT-TATGCCTTGAGTTTTTCTATAAATTTGATGTGGCTCTGAACTGAATGTA
65 TGACAGATAACCCTTCTA-GCCTTGAGTTATGCTGTAAA--TGATGTGCCTTTGAGCTGAGTGTA
* * * * *
2056 ATCGAACTCAAAGGTCTTTGTTAGAAGATAGCCCTTCTTA
127 ATCAAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTG
*
2096 CCTTGAGCTATGCTGTAAAT
1 CCTTGAGCTATGCTGCAAAT
2116 AATTTCTTTA
Statistics
Matches: 737, Mismatches: 103, Indels: 19
0.86 0.12 0.02
Matches are distributed among these distances:
164 7 0.01
165 359 0.49
166 177 0.24
167 162 0.22
168 15 0.02
169 17 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (166 bp):
CCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT
GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCA
AACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTG
Found at i:1595 original size:248 final size:248
Alignment explanation
Indices: 1126--2116 Score: 1149
Period size: 248 Copynumber: 4.0 Consensus size: 248
1116 ATTTGATTTT
* * *
1126 CCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGACAACCCTTCTCGCCTTGAGC
1 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGC
* * * * * *
1191 TATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTTGAATGTCTTTTCTTGGCAGAG
66 TATGCTGCAAATGATGTGTCTTTAAGCTGAGTGTAATCAAACTCGAAGGTCTTTT-TTGACAGAT
* * * *
1256 AGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCCA
130 AGACCTTCTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
* * * ** *
1321 AGGTCTTGGTTGATAGATAACCCTTCTCGCCTTTTGTTATGTTGTAAATAATGTG
195 AGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT-ATGTG
* * *
1376 CCTTTGAGCTGAGTGTAATCAAACTCGAAGATCTTTGTT-AGCAGATAGCCCTTCTCGCCTTGAG
1 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGA-CAGATAACCCTTCTCGCCTTGAG
* * * * *
1440 TTGTGCTGCAAATGATGT-TCTTTAAGGTGAGTGTAATCGAACTCGAAGGTCTTTTTTGATAGAT
65 CTATGCTGCAAATGATGTGTCTTTAAGCTGAGTGTAATCAAACTCGAAGGTCTTTTTTGACAGAT
* * ** *
1504 A-ACCTTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCG
130 AGACCTTCTT-GCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCG
* * * *
1568 AAGGTCTTTGTTGGA-AGATAGCCCTTCTTGCATTGCA-TTATGCTGCAAATATGTG
194 AAGGTCTTTGTT-GACAGATAACCCTTCTAGCCTTG-AGTTATGCTGTAAATATGTG
* * * * **
1623 CCTTTGAGCTGAGTGTAATCTAACTCGAAGGTCTTTGTTGACATATAACCCTTCTAGACTTGAAT
1 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGC
* * * * * **
1688 TATGTTGTAAATGATGTGTCTTTAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGTTGGTAGATA
66 TATGCTGCAAATGATGTGTCTTTAAGCTGAGTGTAATCAAACTCGAAGGTCTTTTTTGACAGATA
*
1753 GCCCTTCTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
131 GACCTTCTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
* *
1818 GGTCTTTGTTAACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
196 GGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT-ATGTG
* * * * *
1872 CCTTTGAGATGAGTGTAATCGAACTCGAAGGTATTTATTGGCAGATAACCCTTCTTGCC-TGAGC
1 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGC
* *
1936 TATACTGCAAATGATGTGTCTTTCAA-CTGAATGTAATCAAACTCGAAGGTCTTTTTTGACAGAT
66 TATGCTGCAAATGATGTGTCTTT-AAGCTGAGTGTAATCAAACTCGAAGGTCTTTTTTGACAGAT
* * * * * * * *
2000 A-ACCCTT-TATGCCTTGAGTTTTTCTATAAATTTGATGTGGCTCTGAACTGAATGTAATCGAAC
130 AGA-CCTTCT-TGCCTTGAGCTATGCTACAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAAC
* * *
2063 TCAAAGGTCTTTGTTAGA-AGATAGCCCTTCTTA-CCTTGAGCTATGCTGTAAATA
191 TCGAAGGTCTTTGTT-GACAGATAACCCTTC-TAGCCTTGAGTTATGCTGTAAATA
2117 ATTTCTTTAA
Statistics
Matches: 633, Mismatches: 91, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
247 84 0.13
248 305 0.48
249 99 0.16
250 142 0.22
251 3 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (248 bp):
CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGC
TATGCTGCAAATGATGTGTCTTTAAGCTGAGTGTAATCAAACTCGAAGGTCTTTTTTGACAGATA
GACCTTCTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
GGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATATGTG
Found at i:6301 original size:17 final size:16
Alignment explanation
Indices: 6277--6308 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6267 TGTAATGCAT
6277 ATATATATATAATAAG
1 ATATATATATAATAAG
6293 ATATGATATATAATAA
1 ATAT-ATATATAATAA
6309 AAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
ATATATATATAATAAG
Found at i:6324 original size:11 final size:11
Alignment explanation
Indices: 6308--6345 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
6298 ATATATAATA
6308 AAAAATAAATT
1 AAAAATAAATT
6319 AAAAATAAAATT
1 AAAAAT-AAATT
*
6331 AAAAA-AAACT
1 AAAAATAAATT
6341 AAAAA
1 AAAAA
6346 ATATAGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 9 0.36
11 6 0.24
12 10 0.40
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAATAAATT
Found at i:6406 original size:24 final size:23
Alignment explanation
Indices: 6378--6427 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
6368 AAAAAAGTAA
6378 AAAAATGAAAATATATATATA-GAAT
1 AAAAA-GAAAATA-ATA-ATAGGAAT
6403 AAAAAGAAAATAATAATAGGAAT
1 AAAAAGAAAATAATAATAGGAAT
6426 AA
1 AA
6428 TAATAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 3 0.12
23 9 0.38
24 7 0.29
25 5 0.21
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (23 bp):
AAAAAGAAAATAATAATAGGAAT
Found at i:6431 original size:15 final size:15
Alignment explanation
Indices: 6411--6445 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6401 ATAAAAAGAA
6411 AATAATAATAGGAA-T
1 AATAATAATA-GAATT
6426 AATAATAATAGAATT
1 AATAATAATAGAATT
6441 AATAA
1 AATAA
6446 AAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
AATAATAATAGAATT
Found at i:6541 original size:10 final size:10
Alignment explanation
Indices: 6502--6551 Score: 75
Period size: 10 Copynumber: 5.1 Consensus size: 10
6492 TAAAACACAC
*
6502 AAATAAAAAA
1 AAATTAAAAA
6512 AAATTAAAAA
1 AAATTAAAAA
6522 AAATTAAAAA
1 AAATTAAAAA
6532 AAATT-AAAA
1 AAATTAAAAA
*
6541 AATTTAAAAA
1 AAATTAAAAA
6551 A
1 A
6552 TCAATAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
9 8 0.22
10 29 0.78
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATTAAAAA
Found at i:6583 original size:9 final size:9
Alignment explanation
Indices: 6571--6636 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
6561 ATGTATAAAC
6571 AAAATAATA
1 AAAATAATA
6580 AAAACTAATA
1 AAAA-TAATA
*
6590 GAAAA-AATG
1 -AAAATAATA
6599 AAAATAGA-A
1 AAAATA-ATA
6608 AAAATAATA
1 AAAATAATA
*
6617 AATA-AATA
1 AAAATAATA
6625 AAAATAATA
1 AAAATAATA
6634 AAA
1 AAA
6637 GGATTAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
8 12 0.26
9 25 0.53
10 6 0.13
11 4 0.09
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (9 bp):
AAAATAATA
Found at i:6623 original size:26 final size:27
Alignment explanation
Indices: 6579--6630 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
6569 ACAAAATAAT
* *
6579 AAAAACTAATAGAAAAAATGAAAATAG
1 AAAAAATAATAGAAAAAATAAAAATAG
*
6606 AAAAAATAATA-AATAAATAAAAATA
1 AAAAAATAATAGAAAAAATAAAAATA
6631 ATAAAAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (27 bp):
AAAAAATAATAGAAAAAATAAAAATAG
Found at i:6631 original size:10 final size:10
Alignment explanation
Indices: 6446--6636 Score: 59
Period size: 10 Copynumber: 19.4 Consensus size: 10
6436 GAATTAATAA
6446 AAAAATAAAT
1 AAAAATAAAT
6456 --AAATAAAT
1 AAAAATAAAT
6464 AAAATATATAAT
1 AAAA-ATA-AAT
6476 AAGAAATAAA-
1 AA-AAATAAAT
6486 ATAAAATAAA-
1 A-AAAATAAAT
* * *
6496 ACACACAAAT
1 AAAAATAAAT
*
6506 AAAAAAAAATT
1 AAAAATAAA-T
6517 AAAAA-AAATT
1 AAAAATAAA-T
6527 AAAAA-AAATT
1 AAAAATAAA-T
**
6537 AAAAA-ATTT
1 AAAAATAAAT
*
6546 AAAAAATCAAT
1 -AAAAATAAAT
* **
6557 AATAATGTAT
1 AAAAATAAAT
*
6567 AAACAAAATAAT
1 AAA-AATA-AAT
6579 AAAAACT-AAT
1 AAAAA-TAAAT
*
6589 AGAAA-AAAT
1 AAAAATAAAT
* *
6598 GAAAATAGA-
1 AAAAATAAAT
6607 AAAAAT-AAT
1 AAAAATAAAT
6616 --AAATAAAT
1 AAAAATAAAT
6624 AAAAAT-AAT
1 AAAAATAAAT
6633 AAAA
1 AAAA
6637 GGATTAAATT
Statistics
Matches: 137, Mismatches: 25, Indels: 39
0.68 0.12 0.19
Matches are distributed among these distances:
7 4 0.03
8 12 0.09
9 24 0.18
10 65 0.47
11 17 0.12
12 13 0.09
13 2 0.01
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:9811 original size:20 final size:20
Alignment explanation
Indices: 9768--9812 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9758 TATGGCAATG
* * *
9768 AACCGACTGAAAACCGGTAG
1 AACCGACTGAAAACAGATAA
*
9788 AACCGACTGAAAATAGATAA
1 AACCGACTGAAAACAGATAA
9808 AACCG
1 AACCG
9813 GGGTAAACCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (20 bp):
AACCGACTGAAAACAGATAA
Found at i:12691 original size:30 final size:30
Alignment explanation
Indices: 12612--12695 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
12602 GATTACCCTA
* *
12612 AATAATATTAATGTATACAAA-ATATTATT
1 AATAATATTAATATATATAAATATATTATT
*
12641 TAT-ATATTGATATATGATATAAATATATT-TT
1 AATAATATT-A-ATAT-ATATAAATATATTATT
12672 GAATAATATTAATATATATAAATA
1 -AATAATATTAATATATATAAATA
12696 ATATATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
28 5 0.11
29 3 0.07
30 12 0.27
31 12 0.27
32 8 0.18
33 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (30 bp):
AATAATATTAATATATATAAATATATTATT
Found at i:13125 original size:32 final size:30
Alignment explanation
Indices: 13084--13156 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 30
13074 TTTGAGATTT
13084 AGATTTTTTTTTAGGAAATTT-TGGAATTTATG
1 AGATTTTTTTTT-GGAAATTTAT-GAATTTA-G
*
13116 AGATTTTTTTTTTGAAATTTCATGAATTTAG
1 AGATTTTTTTTTGGAAATTT-ATGAATTTAG
*
13147 AGGTTTTTTT
1 AGATTTTTTT
13157 AAATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 17 0.46
32 19 0.51
33 1 0.03
ACGTcount: A:0.26, C:0.01, G:0.16, T:0.56
Consensus pattern (30 bp):
AGATTTTTTTTTGGAAATTTATGAATTTAG
Found at i:13126 original size:31 final size:30
Alignment explanation
Indices: 13072--13156 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 30
13062 TGAAATTATG
*
13072 ATTT-TGAGATTTAGA-TTTTTTTTTAGGAA
1 ATTTATGA-ATTTAGAGATTTTTTTTAGGAA
**
13101 ATTT-TGGAATTTATGAGATTTTTTTTTTGAA
1 ATTTAT-GAATTTA-GAGATTTTTTTTAGGAA
*
13132 ATTTCATGAATTTAGAGGTTTTTTT
1 ATTT-ATGAATTTAGAGATTTTTTT
13157 AAATTATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
29 10 0.21
30 4 0.09
31 25 0.53
32 7 0.15
33 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.16, T:0.56
Consensus pattern (30 bp):
ATTTATGAATTTAGAGATTTTTTTTAGGAA
Found at i:13245 original size:6 final size:6
Alignment explanation
Indices: 13234--13319 Score: 59
Period size: 6 Copynumber: 13.3 Consensus size: 6
13224 ATATATCAAG
* *
13234 ATATTA ATATTA ATATT- ATTTATA ATTTATTA ATATTA TTATTA ATATT-
1 ATATTA ATATTA ATATTA ATAT-TA A--TATTA ATATTA ATATTA ATATTA
*
13283 ATTTATA ATACATTA ATATTA TATATTA ATATATA AT
1 ATAT-TA AT--ATTA ATATTA -ATATTA ATAT-TA AT
13320 TTTTTGCATA
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
5 6 0.09
6 35 0.55
7 13 0.20
8 7 0.11
9 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (6 bp):
ATATTA
Found at i:13277 original size:32 final size:32
Alignment explanation
Indices: 13234--13314 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
13224 ATATATCAAG
* **
13234 ATATTAATATTAATATTATTTATAATTTATTA
1 ATATTATTATTAATATTATTTATAATACATTA
13266 ATATTATTATTAATATTATTTATAATACATTA
1 ATATTATTATTAATATTATTTATAATACATTA
13298 ATATTATATATTAATAT
1 ATATTAT-TATTAATAT
13315 ATAATTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 36 0.80
33 9 0.20
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (32 bp):
ATATTATTATTAATATTATTTATAATACATTA
Found at i:13319 original size:20 final size:20
Alignment explanation
Indices: 13181--13319 Score: 92
Period size: 20 Copynumber: 6.8 Consensus size: 20
13171 ATTATAAGAC
*
13181 ATATATTAAATATATTATATT
1 ATATATT-AATATATAATATT
* *
13202 ATTTATT-ATATAAAAGTATT
1 ATATATTAATATATAA-TATT
*
13222 ATATATATCAAGATATTAATATT
1 ATATAT-T-AATATA-TAATATT
*
13245 A-ATATT-ATTTATAAT-TT
1 ATATATTAATATATAATATT
*
13262 ATTAATATTATTAT-TAATATT
1 A-T-ATATTAATATATAATATT
* *
13283 ATTTA-TAATACATTAATATT
1 ATATATTAATATA-TAATATT
13303 ATATATTAATATATAAT
1 ATATATTAATATATAAT
13320 TTTTTGCATA
Statistics
Matches: 90, Mismatches: 15, Indels: 27
0.68 0.11 0.20
Matches are distributed among these distances:
17 3 0.03
18 8 0.09
19 11 0.12
20 34 0.38
21 19 0.21
22 4 0.04
23 9 0.10
24 2 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (20 bp):
ATATATTAATATATAATATT
Found at i:13799 original size:3 final size:3
Alignment explanation
Indices: 13793--13867 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
13783 TTTTTTCATT
* * * *
13793 TTA TTA TTA TTA TAA TTA TTT TTA TAA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
13841 ATA TTA TTA TAA ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
13868 CATGCCAAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:24651 original size:15 final size:16
Alignment explanation
Indices: 24633--24670 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24623 CACGTCTTTT
24633 AAAAA-CGATTTTAAG
1 AAAAATCGATTTTAAG
*
24648 AAAAATCGTTTTTAAG
1 AAAAATCGATTTTAAG
24664 ACAAAAT
1 A-AAAAT
24671 TTGGTCTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 10 0.50
17 5 0.25
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (16 bp):
AAAAATCGATTTTAAG
Found at i:26667 original size:6 final size:6
Alignment explanation
Indices: 26656--31664 Score: 6258
Period size: 6 Copynumber: 841.8 Consensus size: 6
26646 TAAACAGCAG
26656 TATATC TATATC TACATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC T--ATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * *
26706 TATATC TATAAC TACATC TACATC TACATC TACATC TACATC TACATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
26754 TACATC TACATC TACATC TACATC TACATC TACATC TACATC TACATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
26802 TACATC TACATC TACATC TACATC TACATC TACATC TACATC TACATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
26850 TACATC TACATC TACATC TACATC TACATC TACATC TACATC TACATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
26898 TACATC TACATC TACATC TACATC TACATC TACATC TACATC TACATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * *
26946 TATATC --TATC TACATC TCTATC TATATC TCTATC TATCTC TATCTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* *
26992 TATATC TATATC TATATC TATATC TATATC TCTATC TACATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
27040 TCTATC TATATC TATATC TATATC TATATC TATATC TATATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC --TATATC TATATC
27090 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27138 TATATC TATATC TATATC TATATC TATATC TATATC --TATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * *
27184 TATATC TCTATC TCTATC TCTATC TCTATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27232 TATATC --TATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27278 TATATC TATATC --TATC TATATC TATATC TATATC TATCTATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TA--TATC TATATC
27326 TATATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 --TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27376 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* *
27424 TATATC TATATC TATATC TATATC TATATC TATATC TATCTA TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27472 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27520 TATATC TATATC TATATC TATCTATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TA--TATC TATATC TATATC TATATC TATATC
* * *
27570 TATATC TATATC TATATC TATATC TCTATC TATATC TCTATC TCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
27618 TATATC TATATC TCTATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27666 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27714 TATATC --TATC TATATC TATATC TATATC TATATC TATATC --TATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27758 TATATC TATATC --TATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
27804 TATATC TATATC TCTATC --TATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
27850 --TATC TATATC TATATC TATCTC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27896 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27944 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
27992 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
28040 TATATC --TATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
28086 TATATC TATATC TATATC TATATC TATATC TATATC TATATA TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
28134 TATATC TATATC TATATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC --TATATC TATATC TATATC TATATC TATATC TATATC
28184 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
28232 TATATC TATATA TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * *
28280 TATATC TATATA TATATC TCA-ATC TCTATC TCTATC --TATC TCTATC
1 TATATC TATATC TATATC T-ATATC TATATC TATATC TATATC TATATC
* * * * *
28326 TCTATC TATATC TCTATC TATATC TATATC TATCTC TATCTC TATCTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
28374 TATCTC TATCTC TATCTC TATCA-C TCTCTC TATCTC TATCTC TATCTC
1 TATATC TATATC TATATC TAT-ATC TATATC TATATC TATATC TATATC
* * * * * * *
28422 TATCTC TATCTC TATCTC TATCTC TATATC TCTATC --TCTC TATCTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
28468 TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
28516 TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
28564 TATCTC TATCTC TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * * * *
28612 TCTACC TCTACC TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
28660 TCTATC TCTATC TCTATC TCTATC TCTATC --TCTC TATCTC TATCTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
28706 TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * * * * * * * * * *
28754 TCTATC TCTATC TAGACC TAGACC TAGACC GAGACC GAGACC TAGACC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * * * * * * *
28802 TAGACC TAGACC TAGACC TAGA-C TTAGACC TAGACC TATACC TATACC
1 TATATC TATATC TATATC TATATC -TATATC TATATC TATATC TATATC
* * * * * * *
28850 TATACC TATAAC TATACC TATACC TATA-C TTATACC TATACC TATACC
1 TATATC TATATC TATATC TATATC TATATC -TATATC TATATC TATATC
* * * * * * * *
28898 TATACC TATACC TATACC TATACC TATACC TATACC TATACC TATACC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * *
28946 TATACC TATATC TATCTC TATCA-C TCTCTC TATCTCTC TCTCTC TATATC
1 TATATC TATATC TATATC TAT-ATC TATATC TA--TATC TATATC TATATC
28996 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29044 TATATC TATATC TATATC TATATC TATATC TATATC TATCTATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TA--TATC TATATC
29094 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29142 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29190 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TA-ATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29237 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * *
29285 TATATC TCTATC TATATC TATATC TATCTC TATCTC TATCTT TATCA-C
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TAT-ATC
* * * * * *
29333 TCTCTC TATCTCTC TATATC TCTATC TTTATC TATATC TCTATC --TATC
1 TATATC TA--TATC TATATC TATATC TATATC TATATC TATATC TATATC
29381 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29429 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29477 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29525 TATATC --TATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
29571 --TATC TATCTC TATATC TATATC --TATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29615 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29663 --TATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29709 TATATC --TATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29755 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29803 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29851 TATATC TATATC TATATC TATATC --TATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
29897 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* *
29945 TATATC TATATC TATATC TATATC TATATC TATCTC TATCTC TATCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TA--TATC
* * * *
29995 TCTATC TCTATC TATATA TATATC --TATC TATATC TCTATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * *
30041 TATATC TATATC --TATC TCTATC TTTCA-C TCTATC TATCTC TATATC
1 TATATC TATATC TATATC TATATC TAT-ATC TATATC TATATC TATATC
* * * * * *
30087 TCTATC T-TATC -ATCTC TATCTC TCTATA TCTATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
30133 TATATC TATATC TATATC --TATC TATATC TA-ATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
30178 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
30226 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* *
30274 TATATC --TATC TCTATC TATATC TATATC TCTATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* *
30320 TATATC TATA-- TATATC TATCTC TATCTC TATATC --TATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
30364 TATATC TATATC --TATC TATATC TATATC TATATC TATATC TCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * *
30410 TCTATC TATATC TATCTA TCTCTC TCTATC TATATC TCTATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * *
30458 TATATC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
30506 TATCTC TATCTC TATCA-C TCTCTC TATCTC TATCTC TATCTC TATCTC
1 TATATC TATATC TAT-ATC TATATC TATATC TATATC TATATC TATATC
* * * * * * *
30554 TATCTC TATATC TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * * *
30602 TCTATC TCTATC TCTATT TCTATC TCTATC TCTATC TCTATC TCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
30650 TCTATC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
30698 TCTATC TCTATCAC TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC
1 TATATC TATAT--C TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
30748 TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC TCTATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * * * * * ** * * *
30796 TCTATC TAGACC TAGACC TAGACC TAGACC GAGA-C -CGACC TAGACC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * * * * * * * *
30842 TAGACC TAGACC TAGACC TAGACC TAGACC TAGACC TATACC TATACC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * * *
30890 TATACC TATACC TATACC TATACC TATACC TATACC TATACC TATACC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * * *
30938 TATACC TATACC TATACC TATACC TATACC TATACC TATACC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * *
30986 TATCTC TATCA-C TCTCTC TATATC TATATC TATATC TATATC TATATC
1 TATATC TAT-ATC TATATC TATATC TATATC TATATC TATATC TATATC
31034 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31082 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31130 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
*
31178 TATATC TATATC TATATA TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31226 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31274 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31322 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31370 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31418 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31466 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31514 TATATC TATATC TATATC TATATC TATATC TATATC --TATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31560 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31608 TATATC TATATC TATATC TATATC TATATC TATATC --TATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
31654 TATATC TATAT
1 TATATC TATAT
31665 AGATAGATAT
Statistics
Matches: 4744, Mismatches: 155, Indels: 208
0.93 0.03 0.04
Matches are distributed among these distances:
4 116 0.02
5 22 0.00
6 4539 0.96
7 4 0.00
8 63 0.01
ACGTcount: A:0.30, C:0.23, G:0.01, T:0.47
Consensus pattern (6 bp):
TATATC
Found at i:36839 original size:24 final size:21
Alignment explanation
Indices: 36812--36865 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
36802 TATTCTTCTG
36812 GTATCGATACCCTAGGCAAAGGTA
1 GTATCGATACCC-AGG--AAGGTA
*
36836 GTATCGATA-CCATGAAGGTA
1 GTATCGATACCCAGGAAGGTA
36856 GTATCGATAC
1 GTATCGATAC
36866 TACCATGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 15 0.54
22 2 0.07
23 2 0.07
24 9 0.32
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (21 bp):
GTATCGATACCCAGGAAGGTA
Found at i:42617 original size:13 final size:13
Alignment explanation
Indices: 42595--42624 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
42585 GCTTTCTTGT
*
42595 TTGTATAGGATCC
1 TTGTACAGGATCC
42608 TTGTACAGGATCC
1 TTGTACAGGATCC
42621 TTGT
1 TTGT
42625 TGCTTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (13 bp):
TTGTACAGGATCC
Found at i:49661 original size:31 final size:31
Alignment explanation
Indices: 49615--49681 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
49605 AGTGTTTGTG
* * *
49615 GAAGACGGTGGGATTGCACGGTGTTTTTGGA
1 GAAGACGGTGAGATTGCACGGTGTCTTTGAA
* *
49646 GAAGATGGTGAGATTGCATGGTGTCTTTGAA
1 GAAGACGGTGAGATTGCACGGTGTCTTTGAA
49677 GAAGA
1 GAAGA
49682 AGAAGATGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.39, T:0.28
Consensus pattern (31 bp):
GAAGACGGTGAGATTGCACGGTGTCTTTGAA
Found at i:54365 original size:31 final size:32
Alignment explanation
Indices: 54275--54366 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 32
54265 AGTCGAGGGT
54275 TTACCTATGTTCTAAAGAACATATGGACAAAA
1 TTACCTATGTTCTAAAGAACATATGGACAAAA
*** * *
54307 TTACCTATG-TCTTTCGAGACATTTGGACAACA
1 TTACCTATGTTCTAAAGA-ACATATGGACAAAA
*
54339 -TACCTATGTTCTAAGGAACATATGGACA
1 TTACCTATGTTCTAAAGAACATATGGACA
54367 GTTTACCTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
31 23 0.47
32 26 0.53
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (32 bp):
TTACCTATGTTCTAAAGAACATATGGACAAAA
Found at i:54374 original size:31 final size:31
Alignment explanation
Indices: 54274--54381 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 31
54264 GAGTCGAGGG
54274 TTTACCTATGTTCTAAAGAACATATGGACAAA
1 TTTACCTATGTTCTAAAGAACATATGGAC-AA
* *** *
54306 ATTACCTATG-TCTTTCGAGACATTTGGACAA
1 TTTACCTATGTTCTAAAGA-ACATATGGACAA
** * *
54337 CATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTATGTTCTAAAGAACATATGGACAA
*
54368 TTTACCTAGGTTCT
1 TTTACCTATGTTCT
54382 TCGGGACCTA
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
31 36 0.61
32 23 0.39
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (31 bp):
TTTACCTATGTTCTAAAGAACATATGGACAA
Found at i:60613 original size:54 final size:54
Alignment explanation
Indices: 60431--60742 Score: 382
Period size: 54 Copynumber: 5.8 Consensus size: 54
60421 GATACGGTCG
* * * ** *
60431 TTCATAAACATATTATGAATTAT-GTGGGTTGCACACTTAGTGCCAATATGGAAAA
1 TTCATAAACTTATTATGAATT-TCTTAGGTTGCACACACAGTGCCAATA-CGAAAA
*** * *
60486 TTCATAAAAAAAATTATGAATTTATTAGGTTGCACACACAGTG-C--TATGAAAA
1 TTCAT-AAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGAAAA
* * * *
60538 TTCATAAATTTATTATAAATTTTTTAGGTTGCACACACAGTGCCAATACAAAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGAAAA
* *
60592 TTCATAAACTTATTATGAATTTCTTAGGATGCACACACAGTGCCAATACGGAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGAAAA
*
60646 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACAAAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGAAAA
* *
60700 TTCATAAACTTATTATGAA-TTCTTAAGTTGCACACATAGTGCC
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCC
60743 CATTCGGTAA
Statistics
Matches: 227, Mismatches: 25, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
51 32 0.14
52 11 0.05
53 24 0.11
54 124 0.55
55 7 0.03
56 29 0.13
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
TTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGAAAA
Found at i:60732 original size:161 final size:161
Alignment explanation
Indices: 60431--60742 Score: 398
Period size: 161 Copynumber: 1.9 Consensus size: 161
60421 GATACGGTCG
* * ** *
60431 TTCATAAACATATTATGAATTATGTGGGTTGCACACTTAGTGCCAATATGGAAAATTCATAAAAA
1 TTCATAAACATATTATGAATTATGTAGGATGCACACACAGTGCCAATACGGAAAATTCATAAAAA
** * *
60496 AAATTATGAATTTATTAGGTTGCACACACAGTGCTATGAAAATTCATAAATTTATTATAAATTTT
66 AAATTATGAATTTATTAGGTTGCACACACAGTGCTACAAAAATTCATAAACTTATTATAAATTTC
*
60561 TTAGGTTGCACACACAGTGCCAATACAAAAA
131 TTAAGTTGCACACACAGTGCCAATACAAAAA
* *
60592 TTCATAAACTTATTATGAATT-TCTTAGGATGCACACACAGTGCCAATACGG-AAATTCAT-AAA
1 TTCATAAACATATTATGAATTAT-GTAGGATGCACACACAGTGCCAATACGGAAAATTCATAAAA
*** * *
60654 CTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACAAAAATTCATAAACTTATTATGAA
65 AAAATTATGAATTTATTAGGTTGCACACACAGTG-C--TACAAAAATTCATAAACTTATTATAAA
*
60719 -TTCTTAAGTTGCACACATAGTGCC
127 TTTCTTAAGTTGCACACACAGTGCC
60743 CATTCGGTAA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
159 33 0.26
160 10 0.08
161 63 0.49
162 23 0.18
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (161 bp):
TTCATAAACATATTATGAATTATGTAGGATGCACACACAGTGCCAATACGGAAAATTCATAAAAA
AAATTATGAATTTATTAGGTTGCACACACAGTGCTACAAAAATTCATAAACTTATTATAAATTTC
TTAAGTTGCACACACAGTGCCAATACAAAAA
Found at i:63938 original size:16 final size:16
Alignment explanation
Indices: 63917--63949 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
63907 CTTATTCTTT
63917 ATTGTTACCTTATTTA
1 ATTGTTACCTTATTTA
63933 ATTGTTACCTTATTTA
1 ATTGTTACCTTATTTA
63949 A
1 A
63950 CTGTCAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTGTTACCTTATTTA
Found at i:66374 original size:54 final size:54
Alignment explanation
Indices: 66244--66664 Score: 571
Period size: 54 Copynumber: 7.8 Consensus size: 54
66234 GATATGGTCG
* * * * * *
66244 TTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAGTGTCAATACGGAAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATAC-GAAAA
* * *
66299 TTCTTAAACTTTTTATGAATTTCTTAGGTTGCACACATAATGCCAATACTG-AAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATAC-GAAAA
*
66353 TTCATAAACTTAATATGAATTTCTTAGGTTGCACACATAGTGCCAATAC-AGAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGA-AAA
* * * * * *
66407 TTTATAAACTTATTATGAATTTCTTAGGTTCCACTCACAATGCTAATACGAAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAA
* * *
66461 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAATGCCAATACGTAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAA
* * *
66515 TTCATAAACTTATTATTAATTTCTTAGGTTGCACACACATTGCCAATACGAAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAA
66569 TTCATAAACTTATTATGAATTTCTTAGGTTGCACAC--AGTGCCAATACGAAAA
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAA
* *
66621 TTCATAAACTTATTATGAATTTCTTAAGTTGCACATATAGTGCC
1 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCC
66665 CATTCGGTAA
Statistics
Matches: 328, Mismatches: 33, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
52 49 0.15
54 237 0.72
55 42 0.13
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (54 bp):
TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAA
Found at i:80557 original size:46 final size:46
Alignment explanation
Indices: 80507--80598 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
80497 ATACGCTTAA
80507 GACTAACATGTTATTGATTGATGACAACGAGTTGTCATTGACATAG
1 GACTAACATGTTATTGATTGATGACAACGAGTTGTCATTGACATAG
80553 GACTAACATGTTATTGATTGATGACAACGAGTTGTCATTGACATAG
1 GACTAACATGTTATTGATTGATGACAACGAGTTGTCATTGACATAG
80599 AGATTTTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (46 bp):
GACTAACATGTTATTGATTGATGACAACGAGTTGTCATTGACATAG
Found at i:80593 original size:24 final size:24
Alignment explanation
Indices: 80519--80593 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
80509 CTAACATGTT
80519 ATTGATTGATGACAACGAGTTGTC
1 ATTGATTGATGACAACGAGTTGTC
* * *
80543 ATTGACAT-AGGACTAAC-A--TGTT
1 ATTGA-TTGATGAC-AACGAGTTGTC
80565 ATTGATTGATGACAACGAGTTGTC
1 ATTGATTGATGACAACGAGTTGTC
80589 ATTGA
1 ATTGA
80594 CATAGAGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
21 4 0.10
22 13 0.33
24 18 0.46
25 4 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (24 bp):
ATTGATTGATGACAACGAGTTGTC
Found at i:81450 original size:90 final size:90
Alignment explanation
Indices: 81347--81513 Score: 307
Period size: 90 Copynumber: 1.9 Consensus size: 90
81337 ATTTAATTTT
*
81347 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACCT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACCT
81412 GGATATAAAAGGATTATTAAATTCC
66 GGATATAAAAGGATTATTAAATTCC
* *
81437 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGTTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACCT
81502 GGATATAAAAGG
66 GGATATAAAAGG
81514 GTGTGTTAGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAGGGTAACCT
GGATATAAAAGGATTATTAAATTCC
Found at i:83656 original size:23 final size:23
Alignment explanation
Indices: 83627--83671 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
83617 AGTGTTAAAT
83627 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
83650 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
83672 AAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:83677 original size:23 final size:23
Alignment explanation
Indices: 83628--83678 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
83618 GTGTTAAATT
**
83628 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* *
83651 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
83674 ATATT
1 ATATT
83679 ATTAGATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:83953 original size:20 final size:20
Alignment explanation
Indices: 83923--84084 Score: 123
Period size: 20 Copynumber: 8.0 Consensus size: 20
83913 GTTTCCAGAT
*
83923 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* ** *
83943 TCGCATTGCGATT-TTCCAAA
1 TCGCAATGCGATTCTGAC-TA
**
83963 TTCGCGTTGCGATTTTCTGACTA
1 -TCGCAATGCGA--TTCTGACTA
* * *
83986 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
* * *
84006 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
*
84026 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
84046 TCGCAATGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
84066 TCGCAATGCGATTCTGACT
1 TCGCAATGCGATTCTGACT
84085 GTCACAACAC
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
19 3 0.03
20 90 0.76
21 11 0.09
22 9 0.08
23 3 0.03
24 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Found at i:84084 original size:40 final size:40
Alignment explanation
Indices: 83923--84083 Score: 139
Period size: 40 Copynumber: 4.0 Consensus size: 40
83913 GTTTCCAGAT
* * **
83923 TCGCAACGCGATTCTGACTATCGCATTGCGATT-TTCCAAA
1 TCGCAATGCGATTCTGACTATCGCAATGCGATTATGAC-AA
** *
83963 TTCGCGTTGCGATTTTCTGACTATCGCAATGCGAATATGTA-AA
1 -TCGCAATGCGA--TTCTGACTATCGCAATGCGATTATG-ACAA
* * * *
84006 TCGCAATGCGAATATGTA-AATCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTG-ACTATCGCAATGCGATTATGACAA
*
84046 TCGCAATGCGATTCTGACTATCGCAATGCGATTCTGAC
1 TCGCAATGCGATTCTGACTATCGCAATGCGATTATGAC
84084 TGTCACAACA
Statistics
Matches: 95, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
39 2 0.02
40 52 0.55
41 9 0.09
42 9 0.09
43 22 0.23
44 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (40 bp):
TCGCAATGCGATTCTGACTATCGCAATGCGATTATGACAA
Found at i:85104 original size:19 final size:20
Alignment explanation
Indices: 85022--85097 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
85012 TCTGAAACTT
85022 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
* *
85042 AAAACCGCAGCACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
85062 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
85081 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
85098 CTAAAATTGC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
19 17 0.37
20 29 0.63
ACGTcount: A:0.49, C:0.24, G:0.18, T:0.09
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:85520 original size:22 final size:22
Alignment explanation
Indices: 85490--85546 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
85480 GATGGAGATA
85490 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* **
85512 GACTGATTTCTTCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
85534 GACGGATGTCGCC
1 GACGGATTTCGCC
85547 TTAGAGAGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:85748 original size:20 final size:20
Alignment explanation
Indices: 85711--85824 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
85701 GCGCTTTAAA
*
85711 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * *
85731 CATCGCGTTGTGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
85751 AATCGCGTTGCAATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
85771 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
85791 AATCGCGTTGTGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
* *
85811 ACTCGCATTGCGAT
1 AATCGCGTTGCGAT
85825 TTACATATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:95183 original size:44 final size:44
Alignment explanation
Indices: 95133--95221 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
95123 TTCTCTGTTA
95133 GTTGAAGCTTCCAAAGAACTTATATTCTAGTACATGAGTATCAT
1 GTTGAAGCTTCCAAAGAACTTATATTCTAGTACATGAGTATCAT
95177 GTTGAAGCTTCCAAAGAACTTATATTCTAGTACATGAGTATCAT
1 GTTGAAGCTTCCAAAGAACTTATATTCTAGTACATGAGTATCAT
95221 G
1 G
95222 GCATTTGAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (44 bp):
GTTGAAGCTTCCAAAGAACTTATATTCTAGTACATGAGTATCAT
Found at i:98669 original size:11 final size:11
Alignment explanation
Indices: 98653--98679 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
98643 AAGAACAAAG
98653 GGGGATGAATA
1 GGGGATGAATA
98664 GGGGATGAATA
1 GGGGATGAATA
98675 GGGGA
1 GGGGA
98680 AGGTGGCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (11 bp):
GGGGATGAATA
Found at i:100115 original size:29 final size:29
Alignment explanation
Indices: 100073--100144 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
100063 CCCGAAGGAC
100073 CTATCCAGAGGTCACACAGACCCCAGTAA
1 CTATCCAGAGGTCACACAGACCCCAGTAA
*
100102 CTATCCAGAGGTCACACAGACCCCGGTAA
1 CTATCCAGAGGTCACACAGACCCCAGTAA
100131 CTATCCAGAGGTCA
1 CTATCCAGAGGTCA
100145 TAAAGAACCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.33, G:0.19, T:0.15
Consensus pattern (29 bp):
CTATCCAGAGGTCACACAGACCCCAGTAA
Found at i:100200 original size:31 final size:31
Alignment explanation
Indices: 100162--100254 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
100152 CCTCGGCAAC
* *
100162 TGTCCATAGGTCCCAAAGAACCTAGGTAAAA
1 TGTCCATATGTCCCAAAGAACATAGGTAAAA
* ** * *
100193 TGTCCATATGTTCCTTAGAACATAGGTATAC
1 TGTCCATATGTCCCAAAGAACATAGGTAAAA
*
100224 TGTCCATATGTCTCGAAAG-ACATAGGTAAAA
1 TGTCCATATGTC-CCAAAGAACATAGGTAAAA
100255 CCCTCGACTC
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
31 45 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (31 bp):
TGTCCATATGTCCCAAAGAACATAGGTAAAA
Found at i:100419 original size:19 final size:22
Alignment explanation
Indices: 100387--100430 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
100377 CATATATCTC
100387 ATATCATATCACATGTATT-AT
1 ATATCATATCACATGTATTCAT
100408 ATAT-ATAT-ACATGTATTCAT
1 ATATCATATCACATGTATTCAT
100428 ATA
1 ATA
100431 AATCATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 9 0.41
21 4 0.18
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (22 bp):
ATATCATATCACATGTATTCAT
Found at i:100464 original size:23 final size:21
Alignment explanation
Indices: 100398--100464 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 21
100388 TATCATATCA
*
100398 CATGTATT-ATATATATATA-
1 CATGTATTCATATAAATATAT
*
100417 CATGTATTCATATAAATCATTT
1 CATGTATTCATATAAAT-ATAT
*
100439 CATGTAATTCATATCACATATAT
1 CATGT-ATTCATAT-AAATATAT
100462 CAT
1 CAT
100465 ATGTGCATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 8 0.21
20 7 0.18
21 2 0.05
22 5 0.13
23 14 0.36
24 3 0.08
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (21 bp):
CATGTATTCATATAAATATAT
Found at i:101021 original size:64 final size:65
Alignment explanation
Indices: 100913--101072 Score: 166
Period size: 64 Copynumber: 2.5 Consensus size: 65
100903 CAATGAATGT
* * * *
100913 ATGCATCGATGCACTACTTGTGTATCGGTGCATAAAATGCATTCGATATTTT-TATTTAATGGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAATCCATTCGATATTTTCTATTTAATGGGG
* * *
100977 ATGCATCGATGCACTCCTTATGCATTGATGCAT-AAATCCTATTCGATGTTTTCTATTTAAAT--
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAATCC-ATTCGATATTTTCTATTT-AATGG
**
101039 TC
64 GG
* * *
101041 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACTTATGCATCGATGCA
101073 CCTTAAACAA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
63 5 0.06
64 67 0.84
65 5 0.06
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAATCCATTCGATATTTTCTATTTAATGGGG
Found at i:103806 original size:29 final size:29
Alignment explanation
Indices: 103764--103835 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
103754 CCCGAAGGAC
103764 CTATCCAGAGGTCACACAGACCCCAGTAA
1 CTATCCAGAGGTCACACAGACCCCAGTAA
* *
103793 CTATCCAGAGGTCACACAGACCTCGGTAA
1 CTATCCAGAGGTCACACAGACCCCAGTAA
103822 CTATCCAGAGGTCA
1 CTATCCAGAGGTCA
103836 TAAAGAACCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.17
Consensus pattern (29 bp):
CTATCCAGAGGTCACACAGACCCCAGTAA
Found at i:103888 original size:31 final size:31
Alignment explanation
Indices: 103850--103944 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
103840 GAACCTTGGC
* *
103850 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
103881 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * *
103912 TATTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
103943 AA
1 AA
103945 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
31 48 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:104110 original size:19 final size:22
Alignment explanation
Indices: 104078--104121 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
104068 CATATATCTC
104078 ATATCATATCACATGTATT-AT
1 ATATCATATCACATGTATTCAT
104099 ATAT-ATAT-ACATGTATTCAT
1 ATATCATATCACATGTATTCAT
104119 ATA
1 ATA
104122 AATCATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 9 0.41
21 4 0.18
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (22 bp):
ATATCATATCACATGTATTCAT
Found at i:104155 original size:23 final size:21
Alignment explanation
Indices: 104089--104155 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 21
104079 TATCATATCA
*
104089 CATGTATT-ATATATATATA-
1 CATGTATTCATATAAATATAT
*
104108 CATGTATTCATATAAATCATTT
1 CATGTATTCATATAAAT-ATAT
*
104130 CATGTAATTCATATCACATATAT
1 CATGT-ATTCATAT-AAATATAT
104153 CAT
1 CAT
104156 ATGTGCATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 8 0.21
20 7 0.18
21 2 0.05
22 5 0.13
23 14 0.36
24 3 0.08
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (21 bp):
CATGTATTCATATAAATATAT
Found at i:110777 original size:9 final size:9
Alignment explanation
Indices: 110755--110808 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
110745 TATATATATA
*
110755 TTTTTCATCA
1 TTTTTCAT-T
110765 TTTTTCATTT
1 TTTTTCA-TT
110775 TTTTTCATT
1 TTTTTCATT
*
110784 TTTTTTATT
1 TTTTTCATT
110793 TTTTTCATT
1 TTTTTCATT
110802 TTTTTCA
1 TTTTTCA
110809 AGTATAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
9 25 0.62
10 14 0.35
11 1 0.03
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCATT
Found at i:110783 original size:10 final size:10
Alignment explanation
Indices: 110755--110806 Score: 72
Period size: 10 Copynumber: 5.4 Consensus size: 10
110745 TATATATATA
**
110755 TTTTTCATCA
1 TTTTTCATTT
110765 TTTTTCATTT
1 TTTTTCATTT
110775 TTTTTCATTT
1 TTTTTCATTT
110785 TTTTT-A-TT
1 TTTTTCATTT
110793 TTTTTCATTT
1 TTTTTCATTT
110803 TTTT
1 TTTT
110807 CAAGTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 7 0.18
9 2 0.05
10 29 0.76
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:117648 original size:16 final size:16
Alignment explanation
Indices: 117629--117662 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
117619 TGCAATGAAT
*
117629 AATGAATGTTTGCAAA
1 AATGAATGTATGCAAA
117645 AATGAATGTATGCAAA
1 AATGAATGTATGCAAA
117661 AA
1 AA
117663 GGTATTGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (16 bp):
AATGAATGTATGCAAA
Found at i:120970 original size:29 final size:28
Alignment explanation
Indices: 120938--121023 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
120928 ATAAAACATT
120938 AATAAAATATTATATATAAATATTATGAA
1 AATAAAA-ATTATATATAAATATTATGAA
* * * *
120967 AATAATAAGTATATATAAAAATTTTGAA
1 AATAAAAATTATATATAAATATTATGAA
* *
120995 AAGAAAGAATTATAAATTAAATA-TATGAA
1 AATAAA-AATTATATA-TAAATATTATGAA
121024 TTTTTAATTT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 22 0.49
29 18 0.40
30 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (28 bp):
AATAAAAATTATATATAAATATTATGAA
Found at i:121739 original size:18 final size:20
Alignment explanation
Indices: 121716--121768 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
121706 CCCTTTCTTT
121716 AATA-TTAAAAAATAAAT-A
1 AATATTTAAAAAATAAATAA
* *
121734 AATATTTAAAACATAATTAA
1 AATATTTAAAAAATAAATAA
121754 AATAATTTAAAAAAT
1 AAT-ATTTAAAAAAT
121769 TTATAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 11 0.38
20 4 0.14
21 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
AATATTTAAAAAATAAATAA
Found at i:121791 original size:141 final size:138
Alignment explanation
Indices: 121515--121764 Score: 326
Period size: 141 Copynumber: 1.8 Consensus size: 138
121505 TATAAGATAT
* * * * *
121515 TTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGTTTTAAGACAGCTCTTTCCTTAATAT
1 TTTATTTATTTAAAAATATCAAAAAAGGACATCTAGGTGCTTTAAGACAGCCCTTTCCTTAATAT
* **
121580 TAAAAAATAAATAAATATTAAAACATTTATCTAAAAAAATAATTTAAATATATACAATTTGTAAA
66 TAAAAAATAAATAAATATTAAAACATTAATCT--AAAAATAATTTAAATATATACAATAGGTAAA
121645 AATAAAAATA
129 AATAAAAATA
* * * * *
121655 TTTATTTTTTTAAAAATATCAAAAAACGGACATCTAGTTGCTTTATGACTGCCCTTTCTTTAATA
1 TTTATTTATTTAAAAATATCAAAAAA-GGACATCTAGGTGCTTTAAGACAGCCCTTTCCTTAATA
121720 TTAAAAAATAAATAAATATTTAAAACA-TAAT-T-AAAATAATTTAAA
65 TTAAAAAATAAATAAATA-TTAAAACATTAATCTAAAAATAATTTAAA
121765 AAATTTATAA
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
137 13 0.13
140 24 0.25
141 52 0.54
142 8 0.08
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (138 bp):
TTTATTTATTTAAAAATATCAAAAAAGGACATCTAGGTGCTTTAAGACAGCCCTTTCCTTAATAT
TAAAAAATAAATAAATATTAAAACATTAATCTAAAAATAATTTAAATATATACAATAGGTAAAAA
TAAAAATA
Found at i:123321 original size:3 final size:3
Alignment explanation
Indices: 123313--123403 Score: 102
Period size: 3 Copynumber: 31.0 Consensus size: 3
123303 GCCTGTTTTG
* *
123313 TAA TAA TAA TATT TAT TAA TAA TAA -AA TAAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
123358 TAA TAA TAA TAA TAA TAA -ACA -AA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
123401 TAA
1 TAA
123404 AACAAATGGA
Statistics
Matches: 79, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
2 8 0.10
3 66 0.84
4 5 0.06
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:130099 original size:137 final size:136
Alignment explanation
Indices: 129853--130211 Score: 400
Period size: 137 Copynumber: 2.6 Consensus size: 136
129843 AATATTACAA
* * * * ** * **
129853 ATTCGAATAATTAAACTGGAACCTCGAGTAAAATCAAGGAAGAAACTAATAATTTTCCTAATTTA
1 ATTCGAATAATTAAATTGGAACCTCGAGCAAAAGCGAGGACCAAATTAATAATTCACCTAATTTA
* ** * *
129918 AGGACCAAAGGTGAAATTAGGTCTAAGATGGAGGCTCTAATATTAATCCTAACGAACTTTAATCC
66 AGGACTAAATATG-AATTAGGCCTAAGATGGAGGCTCTAATATTAATCCTAACGAACTTTAATCA
129983 ATTATTG-
130 ATT-TTGC
*
129990 ATTCGAATAATTAAATTGGAACCTCGAGCAAAAGCGAGGACTAAATTAATAATTCACCTAATTTA
1 ATTCGAATAATTAAATTGGAACCTCGAGCAAAAGCGAGGACCAAATTAATAATTCACCTAATTTA
* * ** *
130055 AGGATTAGATATGCAATTAGGCCTAAGATGGAGGCTCTAATATTAATCCTAATTAATTTTAATCA
66 AGGACTAAATATG-AATTAGGCCTAAGATGGAGGCTCTAATATTAATCCTAACGAACTTTAATCA
130120 ATTTTGTC
130 ATTTTG-C
* ** * *
130128 ATAT-AATATAATT-AATTCAAAGCCTCGAGCAAAAGCGAAGACCAAATTAAGAATTCACCTAAA
1 AT-TCGA-ATAATTAAATTGGAA-CCTCGAGCAAAAGCGAGGACCAAATTAATAATTCACCT-AA
130191 TTTAAGGACTAAATATGAATT
62 TTTAAGGACTAAATATGAATT
130212 GAATAATTAA
Statistics
Matches: 188, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
136 3 0.02
137 113 0.60
138 9 0.05
139 46 0.24
140 17 0.09
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (136 bp):
ATTCGAATAATTAAATTGGAACCTCGAGCAAAAGCGAGGACCAAATTAATAATTCACCTAATTTA
AGGACTAAATATGAATTAGGCCTAAGATGGAGGCTCTAATATTAATCCTAACGAACTTTAATCAA
TTTTGC
Found at i:138519 original size:20 final size:20
Alignment explanation
Indices: 138494--138543 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
138484 AGTAGAGCTT
138494 TGGACCAAAGTGCTGAAAAG
1 TGGACCAAAGTGCTGAAAAG
138514 TGGACCAAAGTGCTGAAAAG
1 TGGACCAAAGTGCTGAAAAG
*
138534 TGGACTAAAG
1 TGGACCAAAG
138544 GTAGCTGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.30, T:0.16
Consensus pattern (20 bp):
TGGACCAAAGTGCTGAAAAG
Found at i:146333 original size:59 final size:60
Alignment explanation
Indices: 146260--146376 Score: 175
Period size: 59 Copynumber: 2.0 Consensus size: 60
146250 AATATTGAGT
*
146260 GATCATTTTATAACTTTTAATAATA-AGAGGACTCAACAAAGCAATG-CCTATAGTCGGAA
1 GATCATTTTATAACTTTAAATAATAGAG-GGACTCAACAAAGCAATGTCCTATAGTCGGAA
* * *
146319 GATCATTTTGTAACTTTAAATAGTCGAGGGACTCAACAAAGCAATGTCCTATAGTCGG
1 GATCATTTTATAACTTTAAATAATAGAGGGACTCAACAAAGCAATGTCCTATAGTCGG
146377 GGTACCATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 39 0.75
60 13 0.25
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (60 bp):
GATCATTTTATAACTTTAAATAATAGAGGGACTCAACAAAGCAATGTCCTATAGTCGGAA
Found at i:148712 original size:80 final size:79
Alignment explanation
Indices: 148570--148728 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 79
148560 CACTGATTTC
148570 TTAATGACAGCAGTGAGCATCTTCTTAACCATTTAAATTACCTCCTATTTTGTTCATTCCTCACT
1 TTAATGACAGCAGTGAGCATCTTCTTAACCATTTAAATTACCTCCTATTTTGTTCATTCCTCACT
148635 CTCTCTTCCCTAAA
66 CTCTCTTCCCTAAA
148649 TTAATGACAGCAGTGAGCATCTTCTTAACCCATTTAAATTACCTCCTATTTTGTTCATTCCTCAC
1 TTAATGACAGCAGTGAGCATCTTCTTAA-CCATTTAAATTACCTCCTATTTTGTTCATTCCTCAC
148714 TCTCTCTTCCCTAAA
65 TCTCTCTTCCCTAAA
148729 CGGGTTGTCT
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 28 0.35
80 51 0.65
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (79 bp):
TTAATGACAGCAGTGAGCATCTTCTTAACCATTTAAATTACCTCCTATTTTGTTCATTCCTCACT
CTCTCTTCCCTAAA
Found at i:149252 original size:194 final size:194
Alignment explanation
Indices: 148911--149436 Score: 657
Period size: 194 Copynumber: 2.7 Consensus size: 194
148901 TTGTAAAGAA
* * * * * * * * *
148911 GTATCGATACATAACAATATAACATGCTAAAGTTTGACAAAAACCAGTTTCAATTTGACAAAACT
1 GTATCGATACATAACAATATAAAAGGTTAAAATATGACAAAATCGA-TTTCAATATGACAAAACC
* * * * * *
148976 GGTAGAG-A-TACCTAAAT-TGTTGAAATTTGTATCAATACTTTTCTAAGTATATGCATCAAATT
65 GGTAAAGCACTACC-AGATATGTTG-AA--GGTATCAATACTTTTATAAGTATATGTATCATATT
* * *
149038 ATCGATAATTTAGGAATTTAAAAGAATTGCAATAAAAGCGCCTATAAAGTATCGATACTTTATAA
126 ATCGATACTTTAGGAATTTAAAAGAATTGCAATAAAAGAGCCTATAAAGTATCGATACTTTAGAA
149103 ACAT
191 ACAT
* *
149107 GTATCGATACATAACAATATAAAAGGTTAAAATATTACAAAA-CTGATTTCAATATGACAAAATC
1 GTATCGATACATAACAATATAAAAGGTTAAAATATGACAAAATC-GATTTCAATATGACAAAACC
* * *
149171 GGTAAAG-AGCTACCAGATATTTTGAAGGTATCGATACATTTATAAGTATATGTATCATATTATC
65 GGTAAAGCA-CTACCAGATATGTTGAAGGTATCAATACTTTTATAAGTATATGTATCATATTATC
* * *
149235 GATTCTTTAGGAATTTAAAAGAATTGCAATAATAGAGTCTATAAAGTATCGATACTTTAGAAACA
129 GATACTTTAGGAATTTAAAAGAATTGCAATAAAAGAGCCTATAAAGTATCGATACTTTAGAAACA
149300 T
194 T
* * * *
149301 GTATCGATACATGACAATATAACAGGTTAAAATATGACAAAATCGGTTTCAATATGATAAAACCG
1 GTATCGATACATAACAATATAAAAGGTTAAAATATGACAAAATCGATTTCAATATGACAAAACCG
* * *
149366 GTAAAGCACTATCGGATATGTTGAAGGTATCTATACTTTTATAAGTATATGTATCATATTATCGA
66 GTAAAGCACTACCAGATATGTTGAAGGTATCAATACTTTTATAAGTATATGTATCATATTATCGA
149431 TACTTT
131 TACTTT
149437 TAAAAGAAAA
Statistics
Matches: 287, Mismatches: 37, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
194 212 0.74
195 25 0.09
196 42 0.15
197 8 0.03
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (194 bp):
GTATCGATACATAACAATATAAAAGGTTAAAATATGACAAAATCGATTTCAATATGACAAAACCG
GTAAAGCACTACCAGATATGTTGAAGGTATCAATACTTTTATAAGTATATGTATCATATTATCGA
TACTTTAGGAATTTAAAAGAATTGCAATAAAAGAGCCTATAAAGTATCGATACTTTAGAAACAT
Found at i:150068 original size:19 final size:19
Alignment explanation
Indices: 149990--150075 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 19
149980 TTTGGGACCG
* * *
149990 ATTATAGTTAGAAAGTGAT
1 ATTATAGGTAGAAAATAAT
*
150009 ATTATAGGTAGAAAACAAAT
1 ATTATAGGTAGAAAA-TAAT
* * * *
150029 ATTGATA-CTTGTATATAAT
1 ATT-ATAGGTAGAAAATAAT
*
150048 ATTATAGGTAGAAAATGAT
1 ATTATAGGTAGAAAATAAT
*
150067 ATTGTAGGT
1 ATTATAGGT
150076 TGTATAAATA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
18 3 0.06
19 34 0.69
20 9 0.18
21 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (19 bp):
ATTATAGGTAGAAAATAAT
Found at i:150093 original size:58 final size:58
Alignment explanation
Indices: 149990--150099 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
149980 TTTGGGACCG
* * *
149990 ATTATAGTTAGAAAGTGATATTATAGGTAGAAAACAAATATTGATACTTGTATATAAT
1 ATTATAGGTAGAAAATGATATTATAGGTAGAAAACAAATAATGATACTTGTATATAAT
* * * *
150048 ATTATAGGTAGAAAATGATATTGTAGGTTGTATAA-ATATAATGATACTTGTA
1 ATTATAGGTAGAAAATGATATTATAGGTAG-AAAACAAATAATGATACTTGTA
150100 GTAGAGAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 41 0.93
59 3 0.07
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (58 bp):
ATTATAGGTAGAAAATGATATTATAGGTAGAAAACAAATAATGATACTTGTATATAAT
Found at i:154307 original size:226 final size:224
Alignment explanation
Indices: 153813--154511 Score: 966
Period size: 226 Copynumber: 3.1 Consensus size: 224
153803 TAACAAATCA
* *
153813 AGTAATTAACCAGTTATGTTATCGTCA-GATTTCTAAGACTCCATCAGCTTAAACTTTGTTAACA
1 AGTAATTAACCAGTTATGTTATCGT-AGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACA
153877 TTTTAGGCGTTACCTAATATGTTGATAATACATATAACAAATTAAGTAATTAACCTATTTTTGTT
65 TTTTAGGCGTTACCTAATATGTTGATAATAC-TATAACAAATTAAGTAATTAACCTA-TTTTGTT
* * *
153942 ATCATCGGATTTATAAGGCCCCATCACCTTTAATAATGCGCTACCTATTAAGTTACA-AGAGCGC
128 ATCGTCGGATTTATAAGGCCCCATCAACTTTAATAATGCGCTACCTATT-AGTTACATA-AGTGC
*
154006 TACCTAATATGTTATTATACTTGATAATGTTTCC
191 TACCTAATATGTTATTATGCTTGATAATGTTTCC
* * *
154040 AGTAAATAATCAGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
1 AGTAATTAACCAGTTATGTTATCGTAGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
154105 TTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
66 TTTAGGCGTTACCTAATATGTTGATAATACT-ATAACAAATTAAGTAATTAACCTATTTTGTTAT
* * ** * *
154170 CGT-GAGATTTCTAAAGCCCCATCAGGTTTAGTAATGCGCTACCTATTATGTTATATAAGTAG-T
130 CGTCG-GATTTATAAGGCCCCATCAACTTTAATAATGCGCTACCTATTA-GTTACATAAGT-GCT
* *
154233 ACCTAATATGTTATTATGTTTGATCATGTTTCC
192 ACCTAATATGTTATTATGCTTGATAATGTTTCC
* * *
154266 AATAATTAACC-GATTATGTTATCGTAGGATTTTTAAGGCTCCATCAACTTAAACTTTGGTAACA
1 AGTAATTAACCAG-TTATGTTATCGTAGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACA
* *
154330 TTTTAGGCGTTACCTAATATGTTGATAATACTAATGACAAATTAAGTAATTAACCTATTTTGGTA
65 TTTTAGGCGTTACCTAATATGTTGATAATACT-ATAACAAATTAAGTAATTAACCTATTTTGTTA
* * * *
154395 TCGTCGGATTTTTAAGGCCCCATCAACTTTAAAAATGCGCTACC---TA-TTACATAAGTGTTGC
129 TCGTCGGATTTATAAGGCCCCATCAACTTTAATAATGCGCTACCTATTAGTTACATAAGTGCTAC
*
154456 CTAATATGTTATTATGCTTGATAATGTTTTC
194 CTAATATGTTATTATGCTTGATAATGTTTCC
** *
154487 AGTAATTAACTGGTTATATTATCGT
1 AGTAATTAACCAGTTATGTTATCGT
154512 CAATATTTTT
Statistics
Matches: 423, Mismatches: 39, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
220 1 0.00
221 59 0.14
222 1 0.00
223 2 0.00
225 3 0.01
226 241 0.57
227 116 0.27
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (224 bp):
AGTAATTAACCAGTTATGTTATCGTAGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
TTTAGGCGTTACCTAATATGTTGATAATACTATAACAAATTAAGTAATTAACCTATTTTGTTATC
GTCGGATTTATAAGGCCCCATCAACTTTAATAATGCGCTACCTATTAGTTACATAAGTGCTACCT
AATATGTTATTATGCTTGATAATGTTTCC
Found at i:159642 original size:4 final size:5
Alignment explanation
Indices: 159597--159640 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
159587 TCATACCCCA
**
159597 AATTT AATTT AAAAT ATATTT AA-TT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT A-ATTT AATTT AATTT AATTT AATTT AATT
159641 AAGGGACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
5 26 0.79
6 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:163053 original size:87 final size:87
Alignment explanation
Indices: 162951--163123 Score: 328
Period size: 87 Copynumber: 2.0 Consensus size: 87
162941 TATGAAAATT
162951 AAAGAACCTAGAGGCATAAACCTAAAAATGTAGGTTCTAATATTAATCCTATTCAATTTTAATCA
1 AAAGAACCTAGAGGCATAAACCTAAAAATGTAGGTTCTAATATTAATCCTATTCAATTTTAATCA
163016 ATTATTAAATAAAATAATTGAG
66 ATTATTAAATAAAATAATTGAG
*
163038 AAAGAACCTAGAGGCATAAACCTAAAAATGTAGGTTCTAATATTAATCCTATTCGATTTTAATCA
1 AAAGAACCTAGAGGCATAAACCTAAAAATGTAGGTTCTAATATTAATCCTATTCAATTTTAATCA
*
163103 ATTATTGAATAAAATAATTGA
66 ATTATTAAATAAAATAATTGA
163124 AATGGTCCCT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (87 bp):
AAAGAACCTAGAGGCATAAACCTAAAAATGTAGGTTCTAATATTAATCCTATTCAATTTTAATCA
ATTATTAAATAAAATAATTGAG
Found at i:164139 original size:105 final size:104
Alignment explanation
Indices: 163965--164292 Score: 345
Period size: 105 Copynumber: 3.0 Consensus size: 104
163955 ACGCTTAAAA
* * * *
163965 AGGGACTAAATAGTAAATAACCCAATAAATATTTCACATACAAGAAAAAGGGGTAAATAATAATT
1 AGGGACTAAACA-TAAATAA-CCAATAAATA-TTAACATACAAGAAAAA-AGGTAAATAACAATT
* * *
164030 TAGTCCTCGTAGATGACCAGAATGCAAAAATGCACTAAACATAG
62 TAGTCCTCATAGATGACCAAAATGCAAAAA-GCGCTAAACATAG
*
164074 AGGGACTAAACATCAAATAACCAATAAATATTAACATACAAG-AAAATGGTAAATAACAATTTAG
1 AGGGACTAAACAT-AAATAACCAATAAATATTAACATACAAGAAAAAAGGTAAATAACAATTTAG
* * * *
164138 TCCTCATAGATGACCATAATGTATAAAAACGCTAAACTTAG
65 TCCTCATAGATGACCAAAATGCA-AAAAGCGCTAAACATAG
* * * * *
164179 AGGGACTAAACAAAAAATAACCTAATAAATCTATAACATGCATGAAAAAAGGTAAATACCAAATT
1 AGGGACTAAAC-ATAAATAACC-AATAAATAT-TAACATACAAGAAAAAAGGTAAATAAC-AATT
* * *
164244 T-GCTCCTTACAGATGACCAAAATGCAAAAAGACGCTAAACCTAG
62 TAG-TCCTCATAGATGACCAAAATGCAAAAAG-CGCTAAACATAG
164288 AGGGA
1 AGGGA
164293 TATGCACGTG
Statistics
Matches: 188, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
105 65 0.35
106 17 0.09
107 20 0.11
108 29 0.15
109 57 0.30
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.21
Consensus pattern (104 bp):
AGGGACTAAACATAAATAACCAATAAATATTAACATACAAGAAAAAAGGTAAATAACAATTTAGT
CCTCATAGATGACCAAAATGCAAAAAGCGCTAAACATAG
Found at i:166945 original size:23 final size:23
Alignment explanation
Indices: 166892--166956 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 23
166882 TTATTTTCAT
*
166892 TCTTTTTTCTTTTTTTTTTTCTCC
1 TCTTTTTT-TTCTTTTTTTTCTCC
*
166916 TC---ATTTTCTTTTTTTTCTCC
1 TCTTTTTTTTCTTTTTTTTCTCC
*
166936 TCTTTTTTTTCCTTTTTTTCT
1 TCTTTTTTTTCTTTTTTTTCT
166957 TAGGCGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 16 0.47
21 2 0.06
23 14 0.41
24 2 0.06
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (23 bp):
TCTTTTTTTTCTTTTTTTTCTCC
Found at i:179045 original size:108 final size:108
Alignment explanation
Indices: 178858--179054 Score: 279
Period size: 108 Copynumber: 1.8 Consensus size: 108
178848 AGATGGCCAG
** * *
178858 AATGCAAAAATGCGTTAAACTTAAAGGGACTAAACAACAAATAACCTAATAATATTTAACATACA
1 AATGCAAAAATGCACTAAACTTAAAGGGACTAAACAACAAATAACCTAATAATATATAACACACA
*
178923 AGAAAAAGGGGTAAATAACAATTTAGTCCTCACAGATGATGAT
66 AGAAAAAGAGGTAAATAACAATTTAGTCCTCACAGATGATGAT
* **
178966 AATGCAAAAATGCACTAAACTTAGAGGGACTAAACAGTAAATAACCTAATAAATATATAACACAC
1 AATGCAAAAATGCACTAAACTTAAAGGGACTAAACAACAAATAACCTAAT-AATATATAACACAC
* * *
179031 ATGAAAAA-ATGTAAATACCAATTT
65 AAGAAAAAGAGGTAAATAACAATTT
179055 TGGTCCATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 58 0.75
109 19 0.25
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (108 bp):
AATGCAAAAATGCACTAAACTTAAAGGGACTAAACAACAAATAACCTAATAATATATAACACACA
AGAAAAAGAGGTAAATAACAATTTAGTCCTCACAGATGATGAT
Found at i:179830 original size:23 final size:23
Alignment explanation
Indices: 179804--179863 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
179794 TAGGTTTTAA
179804 TTTGGGCCCGAGTTAAGG-TTCGG
1 TTTGGGCCCGAGTTAAGGCTT-GG
* * * **
179827 TTTGGACACGGGTTTGGGCTTGG
1 TTTGGGCCCGAGTTAAGGCTTGG
179850 TTTGGGCCCGAGTT
1 TTTGGGCCCGAGTT
179864 CTCGGTTTGG
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.10, C:0.17, G:0.40, T:0.33
Consensus pattern (23 bp):
TTTGGGCCCGAGTTAAGGCTTGG
Found at i:179955 original size:2 final size:2
Alignment explanation
Indices: 179948--179984 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
179938 TATAAGAATA
179948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
179985 ATGTAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:181979 original size:18 final size:15
Alignment explanation
Indices: 181940--181969 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
181930 ATAAAATCTC
181940 TTATTTCTAGGGATA
1 TTATTTCTAGGGATA
181955 TTATTTCTAGGGATA
1 TTATTTCTAGGGATA
181970 GGATTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TTATTTCTAGGGATA
Found at i:183541 original size:22 final size:23
Alignment explanation
Indices: 183516--183600 Score: 72
Period size: 22 Copynumber: 3.9 Consensus size: 23
183506 ATTTTTAAGC
183516 AGTGCTAA-GACACTTTAGTATT
1 AGTGCTAAGGACACTTTAGTATT
* * * *
183538 AGTGCAAATG-CACTTTCGTATC
1 AGTGCTAAGGACACTTTAGTATT
* *
183560 AGTACTAAGGA-ACTTCT-GTACT
1 AGTGCTAAGGACACTT-TAGTATT
183582 AGTGCTAAGG-CACTTTAGT
1 AGTGCTAAGGACACTTTAGT
183601 TTTTCGATGG
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.02
22 46 0.94
23 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (23 bp):
AGTGCTAAGGACACTTTAGTATT
Found at i:193205 original size:17 final size:17
Alignment explanation
Indices: 193183--193222 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
193173 TTCATGGATT
193183 GGATCGGGATTGGATCG
1 GGATCGGGATTGGATCG
*
193200 GGATCGGGATTGGATTG
1 GGATCGGGATTGGATCG
193217 GGATCG
1 GGATCG
193223 ACGGGCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.10, G:0.47, T:0.25
Consensus pattern (17 bp):
GGATCGGGATTGGATCG
Found at i:193220 original size:11 final size:11
Alignment explanation
Indices: 193178--193203 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
193168 GATACTTCAT
193178 GGATTGGATCG
1 GGATTGGATCG
193189 GGATTGGATCG
1 GGATTGGATCG
193200 GGAT
1 GGAT
193204 CGGGATTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.46, T:0.27
Consensus pattern (11 bp):
GGATTGGATCG
Found at i:211042 original size:82 final size:83
Alignment explanation
Indices: 210937--211107 Score: 220
Period size: 82 Copynumber: 2.1 Consensus size: 83
210927 ACAAATACCA
* * * * * * *
210937 CAATAGGTTTCATTTATAGTGGCATTTTTGAATAAACGCCGCT-ACAGACTTGTACCTTAGTTGC
1 CAATAAGTTTCATATATAGTGGCATTTTTAAACAAACGACG-TGACAAACTTGTACCTTAGTGGC
211001 -GTTTTTTAGAAAAAGCCG
65 AGTTTTTTAGAAAAAGCCG
*
211019 CAATAAGTTTCATATATAGTGGCATTTTTAAACAAACGACGTGACAAACTTGTACTTTAGTGGCA
1 CAATAAGTTTCATATATAGTGGCATTTTTAAACAAACGACGTGACAAACTTGTACCTTAGTGGCA
* *
211084 TTTTTTTAGAAAACGCCG
66 GTTTTTTAGAAAAAGCCG
*
211102 CTATAA
1 CAATAA
211108 AATGATAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
81 1 0.01
82 54 0.71
83 21 0.28
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (83 bp):
CAATAAGTTTCATATATAGTGGCATTTTTAAACAAACGACGTGACAAACTTGTACCTTAGTGGCA
GTTTTTTAGAAAAAGCCG
Found at i:211398 original size:17 final size:17
Alignment explanation
Indices: 211378--211410 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
211368 AACCCAATTT
211378 TTTTTTTCAAT-TTTTAA
1 TTTTTTT-AATATTTTAA
211395 TTTTTTTAATATTTTA
1 TTTTTTTAATATTTTA
211411 GTTTCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTTAATATTTTAA
Found at i:226751 original size:91 final size:91
Alignment explanation
Indices: 226639--227272 Score: 946
Period size: 91 Copynumber: 7.0 Consensus size: 91
226629 GAATTGAACT
* * *
226639 AAGGTTGAATAAGTTCTTCTCATTTTGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
* * **
226704 GAACTCCCCGCTATAAATGTTGATG-C
66 GAACTCTCCACTGGAAATGTTGA-GCC
* * *
226730 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCCCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
* * * *
226795 CAACTCCCCGCTGGAAATGTTGATCC
66 GAACTCTCCACTGGAAATGTTGAGCC
* * *
226821 AAGTTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGACGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*
226886 GAACTCCCCACTGGAAATGTTGAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
* * * * *
226912 AAGGTTAAACAAATTCTTCTAAATATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
* * *
226977 GAACTCTCCACTAGAAATGCTAAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
*
227003 AAGGTTGAACAAGTTCTTCTCTTTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*
227068 GAACTCTCCACTGGAACTGTTGAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
* *
227094 AAGGTTGAACAAGTTCTTTTCATTATGAATTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*
227159 AAACTCTCCACTGGAAATGTTGAGCC
66 GAACTCTCCACTGGAAATGTTGAGCC
* * *
227185 AAGGTTGAACAAGTTCTTCTCACTATGAACTTCTTCTCCCTTGTTGGATGAATTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
227250 GAACTCTCCACTGGAAATGTTGA
66 GAACTCTCCACTGGAAATGTTGA
227273 TTGGTTTATC
Statistics
Matches: 494, Mismatches: 48, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
91 494 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATGTTGAGCC
Found at i:228078 original size:53 final size:54
Alignment explanation
Indices: 228007--228186 Score: 197
Period size: 54 Copynumber: 3.4 Consensus size: 54
227997 ATTTATAGTT
* *
228007 ATCAAGAAACTCCC--AAAATTAAGCTTAGCTTCTTTCAAAATTCATTT-AAAAC
1 ATCAAGAAAC-CCCTGAAAATTAAGCTTAACTCCTTTCAAAATTCATTTAAAAAC
* * * *
228059 ATCAAGAAACTCCTGAAAATTATA-CTTAACTCCGTTCAAAATTTATTTAAAAAT
1 ATCAAGAAACCCCTGAAAATTA-AGCTTAACTCCTTTCAAAATTCATTTAAAAAC
* * * * * * *
228113 ATCAAGAAACCCCTAAAAATCAGGTTTAACCCCTTTCAAAATTCATTTGAATAC
1 ATCAAGAAACCCCTGAAAATTAAGCTTAACTCCTTTCAAAATTCATTTAAAAAC
228167 ATCAAGAAACCCCTGAAAAT
1 ATCAAGAAACCCCTGAAAAT
228187 CAGGTTTAGT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
51 2 0.02
52 10 0.10
53 27 0.26
54 66 0.63
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (54 bp):
ATCAAGAAACCCCTGAAAATTAAGCTTAACTCCTTTCAAAATTCATTTAAAAAC
Found at i:228554 original size:54 final size:54
Alignment explanation
Indices: 228384--228605 Score: 272
Period size: 54 Copynumber: 4.1 Consensus size: 54
228374 TTCTTAGTTG
*
228384 TCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAAATTCA-TTGAAAATCATCA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTT-CTTT-AAAAATTCATTTG-AAA--A-CA
* * *
228443 TCAAGAAACCCCTGAAAAA-TAGGCTTAG-TT-TCTAGAAATTCATTTGAAAACC
1 TCAAGAAACCCCT-AAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACA
** *
228495 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCGAAATTCATTTTAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACA
* *
228549 TCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACA
228603 TCA
1 TCA
228606 TATTGCTTGG
Statistics
Matches: 147, Mismatches: 11, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
51 5 0.03
52 23 0.16
53 3 0.02
54 72 0.49
55 11 0.07
56 5 0.03
58 2 0.01
59 21 0.14
60 5 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACA
Found at i:236504 original size:20 final size:21
Alignment explanation
Indices: 236471--236510 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
236461 TCGTGTATCA
236471 AAATCTTTGTTGAAG-CCATG
1 AAATCTTTGTTGAAGTCCATG
236491 AAATCTTT-TGTGAAGTCCAT
1 AAATCTTTGT-TGAAGTCCAT
236511 AAAGTCATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
AAATCTTTGTTGAAGTCCATG
Found at i:241500 original size:23 final size:22
Alignment explanation
Indices: 241477--241549 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
241467 ATTGGTCTTC
241477 TTTCTTTACTTTCTTTT-TTTT
1 TTTCTTTACTTTCTTTTCTTTT
** * *
241498 TCTT-TTTTTTTTCTTCTCTATT
1 T-TTCTTTACTTTCTTTTCTTTT
*
241520 TTTCTTCACTCTTCTTTTCTTTT
1 TTTCTTTACT-TTCTTTTCTTTT
241543 TTTCTTT
1 TTTCTTT
241550 TATATCTTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
21 13 0.34
22 9 0.24
23 16 0.42
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTTTACTTTCTTTTCTTTT
Found at i:248074 original size:44 final size:44
Alignment explanation
Indices: 247996--248114 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
247986 CGATGAGTGT
* * *
247996 ATCGATGCACTGT-ATAGTGTATCGATGCACATTCAAGACATGC
1 ATCGGTGCACTTTCATAGTGTATCGATACACATTCAAGACATGC
* * **
248039 ATCGGTGCA-TCTTCATAGTGTATTGATACATATTCAAGGGATGC
1 ATCGGTGCACT-TTCATAGTGTATCGATACACATTCAAGACATGC
*
248083 ATCGGTGCACTTTCATAGTGTATCGATGCACA
1 ATCGGTGCACTTTCATAGTGTATCGATACACA
248115 ATGCACACAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 9 0.14
44 52 0.83
45 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
ATCGGTGCACTTTCATAGTGTATCGATACACATTCAAGACATGC
Found at i:253961 original size:65 final size:64
Alignment explanation
Indices: 253867--254022 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 64
253857 TACACTTGGG
* * *
253867 GTGCATCGGTACAC-TAATTACATTCGATGTTTCAA-AAGAGCCAAGAGTGTATCGATGCATGGT
1 GTGCATCGGTACACAAAATT-CATTCGATGTTTCAATAA-AACCAAGAGTGCATCGATGCAT-GT
253930 CT
63 CT
* * * * * *
253932 GTGCCTTGGTACATAAAATTCATTCGATGTTTCAATAAAATCAGGAGTGCATCGATGCATGTTT
1 GTGCATCGGTACACAAAATTCATTCGATGTTTCAATAAAACCAAGAGTGCATCGATGCATGTCT
*
253996 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATTCATTCGA
254023 ATTAGGGTGT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
64 26 0.34
65 44 0.58
66 6 0.08
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATTCATTCGATGTTTCAATAAAACCAAGAGTGCATCGATGCATGTCT
Found at i:257087 original size:61 final size:57
Alignment explanation
Indices: 257008--257132 Score: 153
Period size: 61 Copynumber: 2.1 Consensus size: 57
256998 CACGCGAGGT
* ** *
257008 TATTAAGAATGTGAGATTAAGATGGAAATGATTTTTTTCTGTTTTGGATTTAAAGAAGAAG
1 TATTAAGAATGGGAGATTAAGATAAAAATGA-TTTTATCTGTTTTGGA-TT--AGAAGAAG
* *
257069 TATTAAGAGTGGGAGATTAATATAAAAATGATTTTATCTGTTTTGGATTAGAAGAAG
1 TATTAAGAATGGGAGATTAAGATAAAAATGATTTTATCTGTTTTGGATTAGAAGAAG
257126 TA-TAAGA
1 TATTAAGA
257133 CACATGATGT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
56 5 0.09
57 10 0.17
59 2 0.03
60 15 0.26
61 26 0.45
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (57 bp):
TATTAAGAATGGGAGATTAAGATAAAAATGATTTTATCTGTTTTGGATTAGAAGAAG
Found at i:257562 original size:23 final size:21
Alignment explanation
Indices: 257514--257564 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
257504 AAGGATATTA
*
257514 ATTTTTTATGGAGAATATAAT
1 ATTTTTTATGAAGAATATAAT
257535 ATTTTTTATGAAGAATATAAT
1 ATTTTTTATGAAGAATATAAT
257556 ATTTTTTAT
1 ATTTTTTAT
257565 TTAAACCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (21 bp):
ATTTTTTATGAAGAATATAAT
Found at i:260028 original size:55 final size:55
Alignment explanation
Indices: 259957--260178 Score: 320
Period size: 55 Copynumber: 4.0 Consensus size: 55
259947 ATAGTGCATA
* * *
259957 TACGGTGATTCATCCACTCATGATGAATTTCGTGAATATGCACACGAATTTCCTG
1 TACGGTGATTCATCCACTCAGGATGAATTTCGTGAATATGCACACGAAGTGCCTG
* * *
260012 TATGGTGATTCATCCACTCAAGATGAATTCCGTGAATATGCACACGAAGTGCCTG
1 TACGGTGATTCATCCACTCAGGATGAATTTCGTGAATATGCACACGAAGTGCCTG
* * *
260067 TACGGTGTTTCATCCACTCAGGATGAA-TTCTGTGAATATGCACAAGAAGTGCCTC
1 TACGGTGATTCATCCACTCAGGATGAATTTC-GTGAATATGCACACGAAGTGCCTG
* * *
260122 TACAGTGATTCATCCACTCAGGATGAATTACGTGAATATGCACACAAAGTGCCTG
1 TACGGTGATTCATCCACTCAGGATGAATTTCGTGAATATGCACACGAAGTGCCTG
260177 TA
1 TA
260179 GTACACATAG
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
54 2 0.01
55 144 0.97
56 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (55 bp):
TACGGTGATTCATCCACTCAGGATGAATTTCGTGAATATGCACACGAAGTGCCTG
Found at i:266232 original size:55 final size:55
Alignment explanation
Indices: 266003--266228 Score: 301
Period size: 55 Copynumber: 4.1 Consensus size: 55
265993 TTTCGTGGGT
* ** *
266003 TGCACAC-ATAGTGCCTGTATGGTGATTCATCCACTCAGGATGAATTATGTTAATA
1 TGCACACGA-AGTGCCTGTATGGTGATTCATCCACTCAAGATGAATTCCGTGAATA
* * *
266058 TGCACACAAAGTGCATGTATGGTGATTCATCCACTCAAGATGAATTCTGTGAATA
1 TGCACACGAAGTGCCTGTATGGTGATTCATCCACTCAAGATGAATTCCGTGAATA
* * * * *
266113 TGCACACGAAGTGTCTGTATAGTGATTCATTCACTCAGGATGGATTCCGTGAATA
1 TGCACACGAAGTGCCTGTATGGTGATTCATCCACTCAAGATGAATTCCGTGAATA
* * *
266168 TGTACATGAAGTGCCTGTACGGTGATTCATCCACTCAAGATGAATTCCGTGAATA
1 TGCACACGAAGTGCCTGTATGGTGATTCATCCACTCAAGATGAATTCCGTGAATA
266223 TGCACA
1 TGCACA
266229 TGAAATGCAT
Statistics
Matches: 149, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
55 148 0.99
56 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (55 bp):
TGCACACGAAGTGCCTGTATGGTGATTCATCCACTCAAGATGAATTCCGTGAATA
Found at i:266707 original size:22 final size:23
Alignment explanation
Indices: 266665--266709 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
266655 CTGGTATCGA
*
266665 TACCCTTACCATGGTATCGATAC
1 TACCCTTACCATGGTACCGATAC
*
266688 TACCCTT-CTATGGTACCGATAC
1 TACCCTTACCATGGTACCGATAC
266710 CCCCTACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (23 bp):
TACCCTTACCATGGTACCGATAC
Found at i:269703 original size:16 final size:16
Alignment explanation
Indices: 269684--269718 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
269674 ATACTATAGT
269684 TATTATCATA-TATATA
1 TATTAT-ATATTATATA
269700 TATTATATATTATATA
1 TATTATATATTATATA
269716 TAT
1 TAT
269719 AGTTATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTATATATTATATA
Found at i:270993 original size:22 final size:21
Alignment explanation
Indices: 270957--270997 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
270947 CATCTCTTTT
270957 TCATCATCAACACCATCAACA
1 TCATCATCAACACCATCAACA
*
270978 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACACCATCAA
270998 TTCCGCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACACCATCAACA
Found at i:271322 original size:17 final size:17
Alignment explanation
Indices: 271300--271356 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
271290 GGAGTACAAA
271300 AAGAAAAGAAGAAAAAG
1 AAGAAAAGAAGAAAAAG
**** *
271317 AAGAAAATTTTAAAAAA
1 AAGAAAAGAAGAAAAAG
271334 AAG-AAA-AAGAAAAAG
1 AAGAAAAGAAGAAAAAG
271349 AAGAAAAG
1 AAGAAAAG
271357 TCAAAAAGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 8 0.28
16 6 0.21
17 15 0.52
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (17 bp):
AAGAAAAGAAGAAAAAG
Found at i:271362 original size:16 final size:15
Alignment explanation
Indices: 271297--271366 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 15
271287 ATTGGAGTAC
271297 AAAAAGAA-AAGAAG-
1 AAAAAGAAGAA-AAGT
*
271311 AAAAAGAAGAAAATTTT
1 AAAAAGAAGAAAA--GT
*
271328 AAAAAAAAGAAAAAG-
1 AAAAAGAAG-AAAAGT
271343 AAAAAGAAGAAAAGT
1 AAAAAGAAGAAAAGT
271358 CAAAAAGAA
1 -AAAAAGAA
271367 AACAAGCCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
14 15 0.33
15 10 0.22
16 8 0.18
17 8 0.18
18 4 0.09
ACGTcount: A:0.76, C:0.01, G:0.16, T:0.07
Consensus pattern (15 bp):
AAAAAGAAGAAAAGT
Found at i:274254 original size:2 final size:2
Alignment explanation
Indices: 274247--274318 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
274237 AGTTATTATC
274247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
274289 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
274319 GTTATTATGA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:275609 original size:22 final size:21
Alignment explanation
Indices: 275573--275613 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
275563 CATCTCCTTT
275573 TCATCATCAACACCATCAACA
1 TCATCATCAACACCATCAACA
*
275594 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACACCATCAA
275614 TTCCGCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACACCATCAACA
Found at i:279364 original size:20 final size:21
Alignment explanation
Indices: 279339--279431 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
279329 TTTTCCCAAT
*
279339 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
279359 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
279380 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
279400 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
279421 TCGCAATGCGA
1 TCGCAATGCGA
279432 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:279384 original size:41 final size:41
Alignment explanation
Indices: 279339--279431 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
279329 TTTTCCCAAT
279339 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
279380 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
279421 TCGCAATGCGA
1 TCGCAATGCGA
279432 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:279444 original size:41 final size:41
Alignment explanation
Indices: 279358--279492 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
279348 GAATAAGTAA
* *
279358 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
279399 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
279440 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
279481 TTCGCAACGCGA
1 ATCGCAACGCGA
279493 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:279445 original size:20 final size:20
Alignment explanation
Indices: 279420--279513 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
279410 AATTGGGAAA
*
279420 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
279440 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
279461 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
279481 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
279501 TTCGCAACGCGAT
1 ATCGCAACGCGAT
279514 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:280091 original size:19 final size:19
Alignment explanation
Indices: 280031--280111 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
280021 TTCGAGAATG
280031 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
280051 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
280067 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
280084 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
280103 AAAATCGCA
1 AAAATCGCA
280112 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:280176 original size:20 final size:19
Alignment explanation
Indices: 280107--280291 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
280097 GAAACCAAAA
*
280107 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
280126 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
280145 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
280164 TCGCGGTTACGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
280184 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
280200 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
280217 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
280231 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
280250 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
280270 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
280290 TC
1 TC
280292 AACCAAAAGA
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 59 0.43
20 48 0.35
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:280188 original size:39 final size:38
Alignment explanation
Indices: 280107--280196 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
280097 GAAACCAAAA
* *
280107 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTACGATTTTCATT
*
280145 TCGCGTTGCGATTTTTATTTCGCGGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTACGATTTTCATT
280184 TCGCGTTGCGATT
1 TCGCGTTGCGATT
280197 GTCTGGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTACGATTTTCATT
Found at i:280207 original size:39 final size:39
Alignment explanation
Indices: 280126--280207 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
280116 GATTTTCATT
* * **
280126 TCGC-GTTGCGATTTTCATTTCGCGTTGCGATTTTTATT
1 TCGCGGTTACGATTTTCATTTCGCGTTGCGATTTCTAGG
280164 TCGCGGTTACGATTTTCATTTCGCGTTGCGATTGTCT-GG
1 TCGCGGTTACGATTTTCATTTCGCGTTGCGATT-TCTAGG
280203 TCGCG
1 TCGCG
280208 ATAGTCATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.11
39 32 0.84
40 2 0.05
ACGTcount: A:0.10, C:0.21, G:0.26, T:0.44
Consensus pattern (39 bp):
TCGCGGTTACGATTTTCATTTCGCGTTGCGATTTCTAGG
Found at i:280261 original size:34 final size:33
Alignment explanation
Indices: 280179--280266 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
280169 GTTACGATTT
* *
280179 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
280212 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
280245 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
280267 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:282901 original size:12 final size:12
Alignment explanation
Indices: 282884--282908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
282874 TCTTCGGGGA
282884 CTTTTTCTTCTT
1 CTTTTTCTTCTT
282896 CTTTTTCTTCTT
1 CTTTTTCTTCTT
282908 C
1 C
282909 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:283117 original size:24 final size:24
Alignment explanation
Indices: 283083--283136 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
283073 CTGAAACATC
* *
283083 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
283107 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
283131 ATCAAA
1 ATCAAA
283137 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:284258 original size:39 final size:38
Alignment explanation
Indices: 284191--284264 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
284181 ATTCATTTGA
*
284191 CTATCGCAACGCGAAATGACTATCGCAACGCGAAATGG
1 CTATCGCAACGCGAAATGACTATCGCAACGAGAAATGG
**
284229 CTATCGCAACGCGAAAATGGTTATCGCAACGAGAAA
1 CTATCGCAACGCG-AAATGACTATCGCAACGAGAAA
284265 ATCGCAATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 13 0.41
39 19 0.59
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (38 bp):
CTATCGCAACGCGAAATGACTATCGCAACGAGAAATGG
Found at i:284266 original size:20 final size:19
Alignment explanation
Indices: 284191--284264 Score: 112
Period size: 19 Copynumber: 3.8 Consensus size: 19
284181 ATTCATTTGA
*
284191 CTATCGCAACGCGAAATGA
1 CTATCGCAACGCGAAATGG
284210 CTATCGCAACGCGAAATGG
1 CTATCGCAACGCGAAATGG
284229 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCG-AAATGG
* *
284249 TTATCGCAACGAGAAA
1 CTATCGCAACGCGAAA
284265 ATCGCAATGC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 34 0.67
20 17 0.33
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (19 bp):
CTATCGCAACGCGAAATGG
Found at i:284307 original size:14 final size:14
Alignment explanation
Indices: 284288--284343 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
284278 ATGAAAATCG
284288 CATTGCGATTTTCT
1 CATTGCGATTTTCT
284302 CATTGCGATTTTCATTT
1 CATTGCGATTTTC---T
284319 CGCATTGCGATTTTCT
1 --CATTGCGATTTTCT
*
284335 CGTTGCGAT
1 CATTGCGAT
284344 AGCCATTTCG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 21 0.58
16 1 0.03
17 1 0.03
19 13 0.36
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (14 bp):
CATTGCGATTTTCT
Found at i:284309 original size:33 final size:33
Alignment explanation
Indices: 284272--284342 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
284262 AAAATCGCAA
284272 TGCGAAATGAAAATCGCATTGCGATTTTCTCAT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCAT
** ** ** *
284305 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCAT
284338 TGCGA
1 TGCGA
284343 TAGCCATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCAT
Found at i:284324 original size:19 final size:19
Alignment explanation
Indices: 284297--284333 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
284287 GCATTGCGAT
*
284297 TTTCTCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
284316 TTTCGCATTGCGATTTTC
1 TTTCGCATTGCGATTTTC
284334 TCGTTGCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:284343 original size:33 final size:33
Alignment explanation
Indices: 284285--284362 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
284275 GAAATGAAAA
***
284285 TCGCATTGCGATTTTCTCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCATTGCGATAGCCATT
*
284318 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCATTGCGATAGCCATT
*
284351 TCGCGTTGCGAT
1 TCGCATTGCGAT
284363 AGTCTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCATTGCGATAGCCATT
Found at i:286383 original size:20 final size:19
Alignment explanation
Indices: 286348--286414 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
286338 GAAACTTAAA
286348 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
286367 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
286387 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
286406 ATCGCAACG
1 ATCGCAACG
286415 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:286422 original size:14 final size:14
Alignment explanation
Indices: 286403--286454 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
286393 ATGCGAAATG
286403 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
286417 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
286433 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
286449 AAAATC
1 AAAATC
286455 TTAACGCGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 15 0.47
16 8 0.25
18 9 0.28
ACGTcount: A:0.50, C:0.25, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:286445 original size:32 final size:33
Alignment explanation
Indices: 286387--286465 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
286377 GGAAATGGCT
*
286387 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
286420 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
**
286452 ATCTTAACGCGAAA
1 ATCGCAACGCGAAA
286466 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 28 0.65
33 15 0.35
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:286517 original size:14 final size:14
Alignment explanation
Indices: 286494--286551 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
286484 TTTCATTTCG
286494 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
286508 CGTTGTGATTTCATTT
1 CGTTGCGATTT--TGT
286524 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
286540 CGTTGCGATTTT
1 CGTTGCGATTTT
286552 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:286558 original size:33 final size:33
Alignment explanation
Indices: 286477--286567 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
286467 ACAAATCGCA
*
286477 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
286510 TTGTGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
286542 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
286568 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:286594 original size:20 final size:19
Alignment explanation
Indices: 286540--286606 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
286530 GCGATTTTGT
**
286540 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAATCATTTCG
* **
286559 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAATCATTT-CG
286579 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCA-TTTCG
*
286599 TGTTGCGA
1 CGTTGCGA
286607 AAGTAAACTA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 13 0.34
20 22 0.58
21 3 0.08
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAATCATTTCG
Done.